Felipe Albrecht
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/DeepBlueR |
| git_branch: RELEASE_3_13 |
| git_last_commit: 96a5591 |
| git_last_commit_date: 2021-05-19 12:21:41 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:05:38 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the DeepBlueR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeepBlueR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 461/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| DeepBlueR 1.18.0 (landing page) Felipe Albrecht
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: DeepBlueR |
| Version: 1.18.0 |
| Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings DeepBlueR_1.18.0.tar.gz |
| StartedAt: 2021-10-14 09:30:29 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 09:34:37 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 248.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DeepBlueR.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings DeepBlueR_1.18.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/DeepBlueR.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DeepBlueR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DeepBlueR’ version ‘1.18.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘DeepBlueR’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
prepare_Rd: deepblue_enrich_regions_fast.Rd:35-38: Dropping empty section \examples
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
deepblue_enrich_regions_overlap 0.504 0.096 5.04
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.13-bioc/meat/DeepBlueR.Rcheck/00check.log’
for details.
DeepBlueR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL DeepBlueR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘DeepBlueR’ ... ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading Called method: deepblue_list_column_types Reported status was: okay Called method: deepblue_info Reported status was: okay ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (DeepBlueR)
DeepBlueR.Rcheck/DeepBlueR-Ex.timings
| name | user | system | elapsed | |
| deepblue_aggregate | 0.089 | 0.000 | 0.912 | |
| deepblue_batch_export_results | 1.171 | 0.035 | 4.012 | |
| deepblue_binning | 0.040 | 0.000 | 0.608 | |
| deepblue_cache_status | 0.003 | 0.000 | 0.003 | |
| deepblue_cancel_request | 0.016 | 0.000 | 0.299 | |
| deepblue_chromosomes | 0.058 | 0.004 | 0.345 | |
| deepblue_clear_cache | 0.002 | 0.000 | 0.002 | |
| deepblue_collection_experiments_count | 0.070 | 0.004 | 0.616 | |
| deepblue_commands | 0.075 | 0.012 | 1.316 | |
| deepblue_count_gene_ontology_terms | 0.099 | 0.004 | 0.565 | |
| deepblue_count_regions | 0.024 | 0.015 | 0.606 | |
| deepblue_coverage | 0.036 | 0.008 | 0.554 | |
| deepblue_delete_request_from_cache | 0.004 | 0.000 | 0.004 | |
| deepblue_diff | 0.111 | 0.008 | 0.694 | |
| deepblue_distinct_column_values | 0.033 | 0.004 | 0.601 | |
| deepblue_download_request_data | 0.163 | 0.016 | 1.544 | |
| deepblue_echo | 0.012 | 0.000 | 0.294 | |
| deepblue_enrich_regions_go_terms | 0.063 | 0.004 | 0.898 | |
| deepblue_enrich_regions_overlap | 0.504 | 0.096 | 5.040 | |
| deepblue_export_bed | 0.219 | 0.012 | 2.173 | |
| deepblue_export_meta_data | 0.061 | 0.003 | 0.460 | |
| deepblue_export_tab | 0.093 | 0.004 | 1.155 | |
| deepblue_extend | 0.040 | 0.000 | 0.589 | |
| deepblue_extract_ids | 0.000 | 0.001 | 0.002 | |
| deepblue_extract_names | 0.000 | 0.002 | 0.001 | |
| deepblue_faceting_experiments | 0.022 | 0.000 | 0.657 | |
| deepblue_filter_regions | 0.019 | 0.000 | 0.259 | |
| deepblue_find_motif | 0.028 | 0.000 | 0.311 | |
| deepblue_flank | 0.052 | 0.000 | 0.603 | |
| deepblue_get_biosource_children | 0.021 | 0.000 | 0.311 | |
| deepblue_get_biosource_parents | 0.014 | 0.004 | 0.302 | |
| deepblue_get_biosource_related | 0.021 | 0.000 | 0.316 | |
| deepblue_get_biosource_synonyms | 0.014 | 0.004 | 0.302 | |
| deepblue_get_experiments_by_query | 0.018 | 0.000 | 0.301 | |
| deepblue_get_regions | 0.037 | 0.004 | 0.595 | |
| deepblue_get_request_data | 0.054 | 0.008 | 1.236 | |
| deepblue_info | 0.029 | 0.004 | 0.315 | |
| deepblue_input_regions | 0.014 | 0.000 | 0.310 | |
| deepblue_intersection | 0.055 | 0.000 | 0.829 | |
| deepblue_is_biosource | 0.017 | 0.000 | 0.297 | |
| deepblue_liftover | 0.426 | 0.056 | 3.292 | |
| deepblue_list_annotations | 0.022 | 0.000 | 0.307 | |
| deepblue_list_biosources | 0.015 | 0.004 | 0.325 | |
| deepblue_list_cached_requests | 0.003 | 0.000 | 0.003 | |
| deepblue_list_column_types | 0.046 | 0.001 | 0.436 | |
| deepblue_list_epigenetic_marks | 0.308 | 0.003 | 1.599 | |
| deepblue_list_experiments | 0.149 | 0.000 | 0.794 | |
| deepblue_list_expressions | 0.082 | 0.001 | 0.605 | |
| deepblue_list_gene_models | 0.012 | 0.004 | 0.300 | |
| deepblue_list_genes | 0.177 | 0.014 | 1.805 | |
| deepblue_list_genomes | 0.021 | 0.000 | 0.310 | |
| deepblue_list_in_use | 0.208 | 0.000 | 1.805 | |
| deepblue_list_projects | 0.016 | 0.000 | 0.261 | |
| deepblue_list_recent_experiments | 0.033 | 0.000 | 0.320 | |
| deepblue_list_requests | 0.017 | 0.004 | 0.310 | |
| deepblue_list_samples | 0.187 | 0.024 | 1.075 | |
| deepblue_list_similar_biosources | 0.025 | 0.000 | 0.423 | |
| deepblue_list_similar_epigenetic_marks | 0.020 | 0.000 | 0.275 | |
| deepblue_list_similar_experiments | 0.017 | 0.000 | 0.829 | |
| deepblue_list_similar_genomes | 0.016 | 0.000 | 0.258 | |
| deepblue_list_similar_projects | 0.019 | 0.000 | 0.313 | |
| deepblue_list_similar_techniques | 0.015 | 0.004 | 0.302 | |
| deepblue_list_techniques | 0.022 | 0.004 | 0.343 | |
| deepblue_merge_queries | 0.056 | 0.000 | 0.868 | |
| deepblue_meta_data_to_table | 0.116 | 0.004 | 0.792 | |
| deepblue_name_to_id | 0.057 | 0.000 | 0.892 | |
| deepblue_overlap | 0.070 | 0.004 | 0.889 | |
| deepblue_preview_experiment | 0.019 | 0.000 | 0.303 | |
| deepblue_query_cache | 0.064 | 0.000 | 1.154 | |
| deepblue_query_experiment_type | 0.049 | 0.000 | 0.618 | |
| deepblue_reset_options | 0.000 | 0.001 | 0.000 | |
| deepblue_score_matrix | 0.047 | 0.003 | 0.616 | |
| deepblue_search | 0.054 | 0.000 | 0.673 | |
| deepblue_select_annotations | 0.028 | 0.000 | 0.269 | |
| deepblue_select_column | 0.310 | 0.000 | 1.605 | |
| deepblue_select_experiments | 0.020 | 0.000 | 0.304 | |
| deepblue_select_expressions | 0.026 | 0.000 | 0.270 | |
| deepblue_select_genes | 0.026 | 0.000 | 0.280 | |
| deepblue_select_regions | 0.025 | 0.002 | 0.311 | |
| deepblue_tiling_regions | 0.021 | 0.002 | 0.307 | |